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» Pfam: multiple sequence alignments and HMM-profiles of prote...
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BMCBI
2007
120views more  BMCBI 2007»
13 years 8 months ago
Quantitative sequence-function relationships in proteins based on gene ontology
Background: The relationship between divergence of amino-acid sequence and divergence of function among homologous proteins is complex. The assumption that homologs share function...
Vineet Sangar, Daniel J. Blankenberg, Naomi Altman...
BMCBI
2006
85views more  BMCBI 2006»
13 years 8 months ago
On single and multiple models of protein families for the detection of remote sequence relationships
Background: The detection of relationships between a protein sequence of unknown function and a sequence whose function has been characterised enables the transfer of functional a...
James A. Casbon, Mansoor A. S. Saqi
BMCBI
2002
133views more  BMCBI 2002»
13 years 8 months ago
Identification and characterization of subfamily-specific signatures in a large protein superfamily by a hidden Markov model app
Background: Most profile and motif databases strive to classify protein sequences into a broad spectrum of protein families. The next step of such database studies should include ...
Kevin Truong, Mitsuhiko Ikura
NAR
2006
120views more  NAR 2006»
13 years 8 months ago
TreeDomViewer: a tool for the visualization of phylogeny and protein domain structure
Phylogenetic analysis and examination of protein domains allow accurate genome annotation and are invaluable to study proteins and protein complex evolution. However, two sequence...
Blaise T. F. Alako, Daphne Rainey, Harm Nijveen, J...
BMCBI
2005
140views more  BMCBI 2005»
13 years 8 months ago
JACOP: A simple and robust method for the automated classification of protein sequences with modular architecture
Background: Whole-genome sequencing projects are rapidly producing an enormous number of new sequences. Consequently almost every family of proteins now contains hundreds of membe...
Peter Sperisen, Marco Pagni